Alternatives and similar repositories for pangenome

Users that are interested in pangenome are comparing it to the libraries listed below

• colindaven / awesome-pangenomes
  A list of software for pangenomics
  ☆134Updated last week
• DecodeGenetics / Ratatosk
  Hybrid error correction of long reads using colored de Bruijn graphs
  ☆106Updated 2 months ago
• yeeus / GCI
  A program for assessing the T2T genome continuity
  ☆88Updated 3 weeks ago
• codialab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆113Updated last week
• Kuanhao-Chao / LiftOn
  🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies
  ☆113Updated 3 months ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆120Updated 3 weeks ago
• eldariont / svim-asm
  Structural Variant Identification Method using Genome Assemblies
  ☆125Updated 3 years ago
• Dfam-consortium / TETools
  Dfam Transposable Element Tools Docker container.
  ☆100Updated last month
• sheinasim-USDA / HiFiAdapterFilt
  Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).
  ☆95Updated last year
• EVidenceModeler / EVidenceModeler
  source code for EVM
  ☆118Updated 11 months ago
• epi2me-labs / wf-basecalling
  ☆46Updated 2 weeks ago
• DessimozLab / FastOMA
  FastOMA is a scalable software package to infer orthology relationship.
  ☆83Updated last week
• nanoporetech / rerio
  Research release basecalling models and configurations
  ☆115Updated 5 months ago
• gatech-genemark / ProtHint
  Protein hint generation pipeline for gene finding in eukaryotic genomes
  ☆60Updated 2 years ago
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆197Updated 2 months ago
• nadegeguiglielmoni / genome_assembly_tools
  List of genome assembly tools
  ☆82Updated this week
• WGLab / NanoCaller
  Variant calling tool for long-read sequencing data
  ☆112Updated 7 months ago
• eblerjana / pangenie
  Pangenome-based genome inference
  ☆149Updated 3 months ago
• wdecoster / methplotlib
  Plotting tools for nanopore methylation data
  ☆93Updated 3 months ago
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆127Updated 3 months ago
• qjiangzhao / TEtrimmer
  TEtrimmer: a novel tool to automate manual curation of transposable elements
  ☆102Updated last month
• harvardinformatics / snpArcher
  Snakemake workflow for highly parallel variant calling designed for ease-of-use in non-model organisms.
  ☆82Updated 2 months ago
• hiruna72 / squigualiser
  Visualise and analyse nanopore (ONT) raw signals
  ☆122Updated last month
• lh3 / yak
  Yet another k-mer analyzer
  ☆149Updated 3 weeks ago
• mobinasri / flagger
  Evaluating genome assemblies
  ☆108Updated last month
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆137Updated last year
• epi2me-labs / modbam2bed
  ☆50Updated last month
• kiranbandi / synvisio
  SynVisio is an interactive multiscale visualization tool that lets you explore the results of McScanX a popular synteny and collinearity …
  ☆89Updated last year
• DessimozLab / read2tree
  a tool for inferring species tree from sequencing reads
  ☆152Updated last month